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This page was generated on 2025-02-17 11:43 -0500 (Mon, 17 Feb 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4720
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" 4482
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" 4493
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4446
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 1467/2295HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ontoProc 2.1.4  (landing page)
Vincent Carey
Snapshot Date: 2025-02-16 13:40 -0500 (Sun, 16 Feb 2025)
git_url: https://git.bioconductor.org/packages/ontoProc
git_branch: devel
git_last_commit: f8dae15
git_last_commit_date: 2025-01-08 13:07:05 -0500 (Wed, 08 Jan 2025)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    ERROR  skipped
palomino7Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
lconwaymacOS 12.7.1 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson3macOS 13.7.1 Ventura / arm64  OK    ERROR  skippedskipped

BUILD results for ontoProc on lconway

To the developers/maintainers of the ontoProc package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ontoProc.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: ontoProc
Version: 2.1.4
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data ontoProc
StartedAt: 2025-02-16 17:36:11 -0500 (Sun, 16 Feb 2025)
EndedAt: 2025-02-16 17:39:54 -0500 (Sun, 16 Feb 2025)
EllapsedTime: 223.7 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data ontoProc
###
##############################################################################
##############################################################################


* checking for file ‘ontoProc/DESCRIPTION’ ... OK
* preparing ‘ontoProc’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘ontoProc.Rmd’ using rmarkdown
Channels:
 - conda-forge
Platform: osx-64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.19.1/ontoProc/2.1.4/bsklenv

  added / updated specs:
    - python=3.12.8


The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-64::bzip2-1.0.8-hfdf4475_7 
  ca-certificates    conda-forge/osx-64::ca-certificates-2025.1.31-h8857fd0_0 
  libexpat           conda-forge/osx-64::libexpat-2.6.4-h240833e_0 
  libffi             conda-forge/osx-64::libffi-3.4.6-h281671d_0 
  liblzma            conda-forge/osx-64::liblzma-5.6.4-hd471939_0 
  libsqlite          conda-forge/osx-64::libsqlite-3.48.0-hdb6dae5_1 
  libzlib            conda-forge/osx-64::libzlib-1.3.1-hd23fc13_2 
  ncurses            conda-forge/osx-64::ncurses-6.5-h0622a9a_3 
  openssl            conda-forge/osx-64::openssl-3.4.1-hc426f3f_0 
  pip                conda-forge/noarch::pip-25.0.1-pyh8b19718_0 
  python             conda-forge/osx-64::python-3.12.8-h9ccd52b_1_cpython 
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1 
  setuptools         conda-forge/noarch::setuptools-75.8.0-pyhff2d567_0 
  tk                 conda-forge/osx-64::tk-8.6.13-h1abcd95_1 
  tzdata             conda-forge/noarch::tzdata-2025a-h78e105d_0 
  wheel              conda-forge/noarch::wheel-0.45.1-pyhd8ed1ab_1 


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Channels:
 - conda-forge
Platform: osx-64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
    current version: 24.11.3
    latest version: 25.1.1

Please update conda by running

    $ conda update -n base -c conda-forge conda



# All requested packages already installed.

Channels:
 - conda-forge
Platform: osx-64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... failed

LibMambaUnsatisfiableError: Encountered problems while solving:
  - package h5py-3.6.0-mpi_openmpi_py37h97461c1_0 requires python_abi 3.7.* *_cp37m, but none of the providers can be installed

Could not solve for environment specs
The following packages are incompatible
├─ h5py 3.6.0**  is installable with the potential options
│  ├─ h5py 3.6.0 would require
│  │  └─ python_abi 3.7.* *_cp37m, which can be installed;
│  ├─ h5py 3.6.0 would require
│  │  └─ python_abi 3.10.* *_cp310, which can be installed;
│  ├─ h5py 3.6.0 would require
│  │  └─ python_abi 3.8.* *_cp38, which can be installed;
│  └─ h5py 3.6.0 would require
│     └─ python_abi 3.9.* *_cp39, which can be installed;
└─ python 3.12.8**  is not installable because it requires
   └─ python_abi 3.12.* *_cp312, which conflicts with any installable versions previously reported.


Quitting from lines 52-55 [lkbr] (ontoProc.Rmd)
Error: processing vignette 'ontoProc.Rmd' failed with diagnostics:
one or more Python packages failed to install [error code 1]
--- failed re-building ‘ontoProc.Rmd’

--- re-building ‘owlents.Rmd’ using rmarkdown
Channels:
 - conda-forge
Platform: osx-64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.19.1/ontoProc/2.1.4/bsklenv

  added / updated specs:
    - python=3.12.8


The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-64::bzip2-1.0.8-hfdf4475_7 
  ca-certificates    conda-forge/osx-64::ca-certificates-2025.1.31-h8857fd0_0 
  libexpat           conda-forge/osx-64::libexpat-2.6.4-h240833e_0 
  libffi             conda-forge/osx-64::libffi-3.4.6-h281671d_0 
  liblzma            conda-forge/osx-64::liblzma-5.6.4-hd471939_0 
  libsqlite          conda-forge/osx-64::libsqlite-3.48.0-hdb6dae5_1 
  libzlib            conda-forge/osx-64::libzlib-1.3.1-hd23fc13_2 
  ncurses            conda-forge/osx-64::ncurses-6.5-h0622a9a_3 
  openssl            conda-forge/osx-64::openssl-3.4.1-hc426f3f_0 
  pip                conda-forge/noarch::pip-25.0.1-pyh8b19718_0 
  python             conda-forge/osx-64::python-3.12.8-h9ccd52b_1_cpython 
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1 
  setuptools         conda-forge/noarch::setuptools-75.8.0-pyhff2d567_0 
  tk                 conda-forge/osx-64::tk-8.6.13-h1abcd95_1 
  tzdata             conda-forge/noarch::tzdata-2025a-h78e105d_0 
  wheel              conda-forge/noarch::wheel-0.45.1-pyhd8ed1ab_1 


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Channels:
 - conda-forge
Platform: osx-64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
    current version: 24.11.3
    latest version: 25.1.1

Please update conda by running

    $ conda update -n base -c conda-forge conda



# All requested packages already installed.

Channels:
 - conda-forge
Platform: osx-64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... failed

LibMambaUnsatisfiableError: Encountered problems while solving:
  - package h5py-3.6.0-mpi_openmpi_py37h97461c1_0 requires python_abi 3.7.* *_cp37m, but none of the providers can be installed

Could not solve for environment specs
The following packages are incompatible
├─ h5py 3.6.0**  is installable with the potential options
│  ├─ h5py 3.6.0 would require
│  │  └─ python_abi 3.7.* *_cp37m, which can be installed;
│  ├─ h5py 3.6.0 would require
│  │  └─ python_abi 3.10.* *_cp310, which can be installed;
│  ├─ h5py 3.6.0 would require
│  │  └─ python_abi 3.8.* *_cp38, which can be installed;
│  └─ h5py 3.6.0 would require
│     └─ python_abi 3.9.* *_cp39, which can be installed;
└─ python 3.12.8**  is not installable because it requires
   └─ python_abi 3.12.* *_cp312, which conflicts with any installable versions previously reported.


Quitting from lines 34-38 [getcl] (owlents.Rmd)
Error: processing vignette 'owlents.Rmd' failed with diagnostics:
one or more Python packages failed to install [error code 1]
--- failed re-building ‘owlents.Rmd’

SUMMARY: processing the following files failed:
  ‘ontoProc.Rmd’ ‘owlents.Rmd’

Error: Vignette re-building failed.
Execution halted